Situation Report

Sector Status


COVID-19 cases (as of 1 July)


  • Kenya reported its first case of COVID-19 on 12 March 2020 and, as of 1 July, 6,673 cases had been confirmed and 149 deaths reported. Out of the country's 47 counties, 41 have reported COVID-19 cases.

  • A cholera outbreak is still active in Marsabit County, with a total of 365 cases and 12 deaths (CFR 3.3 per cent) reported as of 22 June. At least 15 cases were reported from 15 to 22 June. The cholera outbreaks reported in Garissa, Murang’a, Turkana and Wajir since 1 January 2020 are reportedly under control and by 10 June, at least 633 cases and 13 deaths had reported since the beginning of the year.

  • People living in areas experiencing rains and flooding are potentially exposed to diseases and in need of urgent interventions, including medical assistance.

  • A measles outbreak is still active in Kilifi, Garissa, Tana River and West Pokot counties, with a cumulative 281 cases since October 2019.

  • A kala-azar outbreak is active in five counties. Since January 2020, a total of 93 visceral leishmaniasis confirmed cases with five deaths (CFR 5.4 per cent), have been reported in in Marsabit, Garissa, Kitui and Baringo counties.

  • Health institutions have reported insufficient medical facilities including, personal protection kits for frontline health workers and community health workers, laboratory testing kits for the mass testing of the targeted communities and high-risk groups, logistical support for the quarantine facilities, and establishment of new quarantine and Isolation centres to respond to the increasing numbers of new cases and contacts across the country.

  • Support in maintenance of essential health services, specifically: PPEs, Oxygen Concentrators, and essential life-saving commodities used in the maintenance of essential health services remains critical as is the provision of referral services in 12 counties to ensure referrals 24/7 for emergency SRH cases, in particular for women and girls in COVID-19 isolation centres, quarantine centres and quarantine neighbourhoods.


  • Health sector partners are providing support to County Health Departments and public health teams in responding to the health challenges posed by the COVID-19 pandemic and other outbreaks, including cholera, malaria and measles reporting active transmissions across the country.

  • Rapid response, contact tracing, case management, community mobilization for risk communication and health promotion is going on in all counties. Public education is on-going to enforce hygiene and social distancing, to reduce increasing transmission.

  • Targeted Expanded Mass testing continued across the country. More than 155,300 laboratory tests have been conducted by 28 laboratories including two mobile labs located across the country, representing an increase of over 30,000 tests since end of June 2020.

  • At least 13 technical officers have been deployed to support COVID-19 response in eight most-affected counties of Kilifi, Mombasa, Nairobi, Nakuru, Embu, Kisumu,  Eldoret, Garissa and the refugee camps to support critical areas of health sector coordination, laboratory testing, rapid response and contact tracing teams, as well as risk communication.

  • Capacity building completed for Case Management and IPC (Isolation capacity, quarantine facilities, admissions, discharges, PPEs etc.) for 260 case managers and quarantine managers in Kiambu, Mombasa, Kilifi, Eldoret, Busia and Migori counties. Participants were selected from various health facilities and isolation centers, including doctors, pharmacists, nurses, laboratory, clinical officers, surveillance, and public health officers.

  • Technical support to MOH in adoption and rollout of the new Kenya COVID-19 Laboratory testing strategy and the roll out of the Home and Community based Isolation and quarantine strategies. The MOH is rolling out the home and community-based isolation and quarantine protocols across the country to reduce excess loads on the current facilities considering the increasing number of cases most of whom are asymptomatic.

  • Completed procurement of personal protective equipment (PPE) which includes 106,000 sets of mask-high-fil FFP2/N95 masks. The procured items have arrived in country as of 30 June and are undergoing port clearance and will be handed over to KEMSA.

  • At least 8,300 out of 13,500 targeted people in 15 Nairobi informal settlements were reached with integrated services including: child immunization, nutrition services, curative services, ante-natal care, family planning, COVID-19 screening among other PHC services.

  • At least 2,000 Community Health Volunteers trained in Busia and Mombasa counties on contact tracing and have been integrated into the sub-county Contact Tracing teams. The community health volunteers are expected to lead the home and community-based isolation strategy implementation for COVID-19 in the sub-counties.

  • Support to the Ministry of Health on surveillance and data collection and management at six government quarantine sites in Nairobi.

  • About 635 refugees and host community households in Eastleigh were reached in a two-week risk communication campaign with basic COVID-19 information, sensitization to home-based care, promotion of compliance to COVID-19 guidelines, and general health and hygiene promotion.

  • Some 700,000 people have been reached so far with information on Sexual Reproductive Health through various media outlets including social media, webinars and print and electronic media.

  • About 480 health care providers have been trained on COVID-19 guidelines while 140 have been sensitized on the Reproductive, Maternal, Newborn and Child Health (RMNCH) guidelines for COVID-19 in Kilifi County .


  • Most of the isolation and quarantine centres are full and options of home care management of cases and quarantine are being considered.

  • Uptake of other essential health services have drastically reduced since the COVID-19 pandemic. Key sectors affected are immunization, reproductive health and non-communicable diseases.

  • Inadequate quantities of personal protection kits, infection prevention and control materials in health facilities as well as laboratory kits and accessories as well as operational funds at the sub county and facility levels.

  • Overstretched health workers have limited provision of essential services at various health centres.

  • Challenges in coordination and approval at point of entry (PoE) in Moyale to conduct capacity building activities at PoE, to adequately support equipping health facilities, staff and port health/ immigration officials and interventions to strengthen active engagement of border town communities in the COVID-19 response.